Locus 1250

Sequence ID 2R_DroMel_CAF1
Location 4,895,529 – 4,895,629
Length 100
Max. P 0.568228
window2166

overview

Window 6

Location 4,895,529 – 4,895,629
Length 100
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 85.73
Mean single sequence MFE -32.79
Consensus MFE -23.86
Energy contribution -24.40
Covariance contribution 0.54
Combinations/Pair 1.15
Mean z-score -2.53
Structure conservation index 0.73
SVM decision value 0.07
SVM RNA-class probability 0.568228
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4895529 100 - 20766785
GCAGCAUAUGCAUAUUUGUAUGUG-------CAACUGGCUCAGCAAGUGCCCCACCAAUGUUGCUCAUACGCCGCGUGGUACGGCCAACAAUUUUCCGUGCCAGCUA
((.((....))......(((((.(-------(((((((....((....))....)))..))))).))))))).((.((((((((...........)))))))))).. ( -33.70)
>DroSec_CAF1 28769 100 - 1
GCAGCAUAUGCAUAUUUGUAUGUG-------CAGCUGACUUUCCAAGUGCCCCACCAAUGUUGCUCAUACGCCGCGUGGCACGGCCAACAAUUUUCCGUGCCAGCUA
...(((((((((....))))))))-------)((((.....................((((.((......)).))))(((((((...........))))))))))). ( -32.40)
>DroSim_CAF1 47404 100 - 1
GCAGCAUAUGCAUAUUUGUAUGUG-------CAGCUGACUUUCCAAGUGCCCCACCAAUGUUGCUCAUACGCCGCGUGGCACGGCCAACAAUUUUCCGUGCCAGCUA
...(((((((((....))))))))-------)((((.....................((((.((......)).))))(((((((...........))))))))))). ( -32.40)
>DroEre_CAF1 42902 100 - 1
GCAGCAUAUGCAUAUUUGUAUGUG-------CAACUGGCUCUCCAAGUGCCCCACAAAUGUUGCUCAUACGUCGCGUGGUACGGCCAACAAUUUUCCGUGCCAGCUU
(((((((.(((((((....)))))-------))...(((.(.....).)))......))))))).........((.((((((((...........)))))))))).. ( -33.60)
>DroYak_CAF1 47632 100 - 1
GCAGCAUAUGCAUAUUUGUAUGUG-------CAACUGGCUCUCCAAGUGCCCCACAAAUGUUGCUCAUACGCCGCGUGGUACGGCCAACAAUUUUCCGUGCCAGCAA
(((((((.(((((((....)))))-------))...(((.(.....).)))......))))))).........((.((((((((...........)))))))))).. ( -34.10)
>DroAna_CAF1 28617 90 - 1
GCAGCUUAUGCAUAUUUGUGUGUGGCGGCUACAACUGGCACUCCGAGUGCCCUACAAAUGUUGCUCAUACGCCGCGUGGUACG-----------------CUAGCAA
(((((.(((.(((....((((((((((((.......(((((.....)))))........))))).)))))))...)))))).)-----------------)).)).. ( -30.56)
>consensus
GCAGCAUAUGCAUAUUUGUAUGUG_______CAACUGGCUCUCCAAGUGCCCCACAAAUGUUGCUCAUACGCCGCGUGGUACGGCCAACAAUUUUCCGUGCCAGCUA
((((((((((((....))))))).............(((.(.....).)))........))))).........((.((((((((...........)))))))))).. (-23.86 = -24.40 +   0.54)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:02 2006